SNP Detail Info-rs1417364

Organism: Homo sapiens

Alleles: G>A

Gene : Feature

NRDC : Intron Variant
LOC105378721 : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

A=0224 (6715/29908,GnomAD)
A=0303 (8829/29118,TOPMED)
A=0260 (1303/5008,1000G)
A=0093 (359/3854,ALSPAC)
A=0101 (374/3708,TWINSUK)

Position: chr1:51797410 (GRCh38.p7) (1p32.3)

Phenotype: AD

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 17 Enhancers around

Promoter: 0 Promoter around

Molecule type	Change	Amino acid[Codon]	SO Term
NRDC transcript variant 2	NM_001101662.1:c.	N/A	Intron Variant
NRDC transcript variant 3	NM_001242361.1:c.	N/A	Intron Variant
NRDC transcript variant 1	NM_002525.2:c.	N/A	Intron Variant
NRDC transcript variant X4	XM_005270903.1:c.	N/A	Intron Variant
NRDC transcript variant X1	XM_011541522.1:c.	N/A	Intron Variant
NRDC transcript variant X3	XM_011541523.1:c.	N/A	Intron Variant
NRDC transcript variant X6	XM_011541525.2:c.	N/A	Intron Variant
NRDC transcript variant X4	XM_017001375.1:c.	N/A	Intron Variant

Molecule type	Change	Amino acid[Codon]	SO Term
LOC105378721 transcript	XR_947342.2:n.	N/A	Intron Variant

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	G=0.390	A=0.610
1000Genomes	American	Sub	694	G=0.790	A=0.210
1000Genomes	East Asian	Sub	1008	G=0.855	A=0.145
1000Genomes	Europe	Sub	1006	G=0.885	A=0.115
1000Genomes	Global	Study-wide	5008	G=0.740	A=0.260
1000Genomes	South Asian	Sub	978	G=0.910	A=0.090
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	G=0.907	A=0.093
The Genome Aggregation Database	African	Sub	8666	G=0.455	A=0.545
The Genome Aggregation Database	American	Sub	838	G=0.800	A=0.200
The Genome Aggregation Database	East Asian	Sub	1618	G=0.808	A=0.192
The Genome Aggregation Database	Europe	Sub	18484	G=0.921	A=0.078
The Genome Aggregation Database	Global	Study-wide	29908	G=0.775	A=0.224
The Genome Aggregation Database	Other	Sub	302	G=0.830	A=0.170
Trans-Omics for Precision Medicine	Global	Study-wide	29118	G=0.696	A=0.303
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	G=0.899	A=0.101

PMID	Title	Author	Journal
21703634	A meta-analysis of two genome-wide association studies identifies 3 new loci for alcohol dependence.	Wang KS	J Psychiatr Res

SNP ID	p-value	Traits	Study
rs1417364	9.18E-06	alcohol dependence	21703634

Position (v37)	eGene	GeneID	Variant	p-value	TSS	Tissue
There is no eQTL annotation for this SNP

Probe ID	Position	Gene	beta	p-value
There is no meQTL annotation for this SNP

Chromosome	Start	End	Region	Distance ( -/+ : Up/Downstream )
chr1	52234470	52235198	E067	-27884
chr1	52250582	52251320	E067	-11762
chr1	52250582	52251320	E068	-11762
chr1	52234142	52234236	E069	-28846
chr1	52234470	52235198	E069	-27884
chr1	52250582	52251320	E069	-11762
chr1	52271889	52271970	E069	8807
chr1	52234142	52234236	E071	-28846
chr1	52234470	52235198	E071	-27884
chr1	52249945	52250014	E071	-13068
chr1	52250582	52251320	E071	-11762
chr1	52310838	52311008	E071	47756
chr1	52250582	52251320	E072	-11762
chr1	52234470	52235198	E074	-27884
chr1	52249945	52250014	E074	-13068
chr1	52250582	52251320	E074	-11762
chr1	52284328	52284416	E074	21246

rs1417364